genome.fa.s24.2.7.7.80.10.50.1000.9.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Gbar_D11
Parameters: 2 7 7 80 10 50 1000
Length:  68311261

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  9  of  226  ( 27070 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3276426--3276922	211	2.4	211	93	1	834	29	26	16	27	1.96
3277053--3277253	31	6.5	31	76	3	183	41	15	9	33	1.79
3277053--3277289	61	3.9	61	74	2	208	41	16	8	33	1.79
3277053--3277288	92	2.6	91	80	4	251	41	16	8	33	1.79
3286799--3286854	22	2.6	22	86	5	71	53	0	0	46	1.00
3293002--3293032	15	2.1	15	93	0	53	35	19	3	41	1.67
3298643--3298710	16	4.2	16	96	0	127	26	0	35	38	1.57
3298926--3298980	15	3.4	16	80	16	53	50	1	0	47	1.11
3298946--3298980	18	2.0	17	88	5	52	54	0	0	45	0.99
3299066--3299100	18	2.0	17	88	5	52	54	0	0	45	0.99
3298961--3299151	61	3.2	60	67	20	155	48	5	2	43	1.38
3298924--3299207	120	2.4	120	90	2	446	48	4	1	44	1.34
3308723--3308753	15	2.1	15	93	0	53	48	29	0	22	1.51
3309582--3309618	8	4.4	8	90	10	56	27	2	0	70	1.01
3309582--3309618	17	2.2	17	90	9	58	27	2	0	70	1.01
3310848--3310878	13	2.4	13	100	0	62	77	0	0	22	0.77
3316964--3317025	32	2.0	32	87	3	90	38	14	16	30	1.88
3337860--3337897	19	2.0	19	85	10	51	7	0	26	65	1.19
3345808--3345832	2	12.5	2	100	0	50	0	48	0	52	1.00
3359668--3359701	17	1.9	18	94	5	61	64	0	0	35	0.94
3360211--3360260	25	2.0	24	84	3	64	62	4	2	32	1.25
3361582--3361606	3	8.3	3	100	0	50	68	32	0	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3393717--3393797	40	2.0	40	92	0	135	38	11	14	35	1.82
3393956--3394011	29	1.9	29	88	0	85	35	1	8	53	1.43
3395108--3395181	16	4.5	17	75	11	73	31	35	17	16	1.92
3395259--3395327	30	2.3	30	84	0	84	28	17	23	30	1.97
3395259--3395332	15	4.9	15	73	12	62	28	18	21	31	1.97
3395281--3395338	30	1.9	30	92	0	98	29	22	18	29	1.98
3397951--3398015	25	2.8	23	80	13	62	76	1	18	3	0.99
3424138--3424205	35	1.9	34	82	5	82	48	4	2	44	1.38
3424629--3424696	22	3.1	22	86	0	100	30	27	0	41	1.56
3424668--3424726	30	2.0	30	89	0	91	30	33	0	35	1.58
3424646--3424748	52	2.0	51	83	9	129	32	32	0	35	1.58
3424698--3424739	22	1.9	22	90	0	66	33	33	0	33	1.58
3424781--3424836	29	2.0	28	86	10	78	37	0	1	60	1.07
3424781--3424837	28	2.0	28	83	12	73	38	0	1	59	1.08
3424934--3424989	24	2.3	23	77	19	60	28	0	5	66	1.14
3427107--3427181	23	3.2	24	83	5	91	46	25	0	28	1.53
3427135--3427420	32	9.8	29	75	19	251	48	24	0	26	1.51
3427129--3427422	56	5.1	56	80	11	376	48	23	0	27	1.51
3427151--3427389	61	3.9	62	83	9	323	48	23	0	28	1.51
3427230--3427298	23	3.0	23	89	2	102	47	27	0	24	1.52
3427347--3427415	23	3.0	23	89	2	102	47	27	0	24	1.52
3427117--3427422	117	2.6	117	98	1	596	48	24	0	27	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3428393--3428617	125	1.8	125	85	2	319	31	24	15	28	1.95
3437519--3437564	19	2.4	20	78	10	51	21	10	36	30	1.88
3443997--3444066	36	1.9	36	97	0	131	31	8	20	40	1.82
3447055--3447923	173	5.0	173	98	0	1666	37	13	19	28	1.90
3447055--3447923	347	2.5	347	98	0	1677	37	13	19	28	1.90
3455474--3455516	16	2.8	15	77	19	52	60	6	6	25	1.48
3455474--3455510	15	2.4	17	82	17	53	59	8	5	27	1.48
3457050--3457171	42	3.0	40	72	19	110	36	4	2	56	1.34
3458155--3458203	21	2.2	21	82	10	53	26	0	14	59	1.36
3460163--3460191	13	2.2	13	100	0	58	41	0	0	58	0.98
3461174--3461222	24	2.1	23	84	3	62	69	4	12	14	1.33
3461178--3461222	23	2.0	22	84	16	58	68	4	13	13	1.35
3462471--3462547	31	2.5	31	82	4	102	42	6	11	38	1.67
3463719--3463770	25	2.1	25	100	0	104	23	11	15	50	1.76
3465039--3465084	19	2.3	20	78	17	51	52	0	0	47	1.00
3475373--3475432	31	1.9	31	86	6	86	36	6	6	50	1.55
3475372--3475439	31	2.2	30	82	12	84	35	5	8	50	1.58
3475689--3475748	31	2.0	30	83	3	75	45	11	6	36	1.67
3477555--3477589	17	2.1	16	89	5	52	57	2	0	40	1.14
3481536--3481666	68	1.9	68	95	1	237	46	9	6	38	1.61
3481589--3481759	93	1.8	92	83	7	229	46	10	4	38	1.59
3481657--3481713	25	2.3	25	84	0	69	52	10	0	36	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3481658--3481710	9	6.1	9	78	8	56	52	11	0	35	1.37
3481783--3481824	16	2.6	16	96	0	75	45	4	0	50	1.23
3481798--3481853	23	2.5	23	85	2	78	46	1	0	51	1.11
3483596--3483699	29	3.7	29	65	14	90	37	12	13	36	1.83
3486739--3486807	31	2.2	31	81	0	84	46	10	8	34	1.69
3516190--3516266	38	2.0	38	89	0	118	27	16	14	41	1.87
3532670--3532817	43	3.4	43	88	4	217	32	24	16	27	1.96
3532935--3533203	31	8.7	31	85	2	355	42	16	9	31	1.80
3533908--3533945	18	2.1	19	85	5	51	28	7	2	60	1.38
3538132--3538205	28	2.8	27	75	15	75	41	0	2	55	1.14
3538220--3538266	23	2.0	23	88	8	69	34	0	2	63	1.06
3538130--3538288	52	3.0	52	75	12	162	37	1	3	57	1.25
3546106--3546193	44	2.0	44	93	2	151	44	13	7	34	1.73
3552420--3552480	25	2.4	25	80	15	72	31	6	1	60	1.32
3552601--3552665	26	2.5	25	76	11	60	66	3	1	29	1.16
3554633--3554674	19	2.2	19	87	8	59	47	0	0	52	1.00
3554665--3554702	20	2.0	20	89	5	60	36	0	5	57	1.21
3554643--3554710	28	2.6	25	77	11	64	41	0	2	55	1.15
3555030--3555084	23	2.4	23	96	0	101	43	16	14	25	1.86
3556698--3556724	4	6.8	4	100	0	54	22	0	0	77	0.76
3559157--3559206	24	2.1	24	88	0	73	38	30	2	30	1.69
3559173--3559240	32	2.3	28	75	18	73	33	38	1	26	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3559182--3559242	32	1.9	32	93	0	104	31	36	1	31	1.68
3568324--3568361	12	3.2	12	85	14	60	81	0	18	0	0.69
3571571--3571595	13	1.9	13	100	0	50	92	0	8	0	0.40
3593837--3593913	37	2.1	37	95	0	136	49	11	6	32	1.65
3595099--3595306	102	2.0	102	95	1	373	31	12	15	41	1.83
3603783--3603825	13	3.1	14	84	12	54	60	0	0	39	0.97
3607406--3607440	16	2.2	16	100	0	70	31	17	5	45	1.71
3612974--3613005	15	2.1	15	94	0	55	65	0	12	21	1.25
3616235--3616261	8	3.4	8	100	0	54	55	0	0	44	0.99
3617108--3617167	25	2.4	25	81	13	63	55	0	0	45	0.99
3623585--3623621	16	2.4	16	90	4	58	59	5	2	32	1.34
3623739--3623860	60	2.0	60	88	3	183	54	13	0	31	1.45
3623854--3623964	23	4.8	23	78	16	131	53	16	0	30	1.43
3623853--3623944	42	2.2	42	96	0	166	53	16	0	30	1.43
3623890--3623966	27	3.0	27	87	9	117	54	15	0	29	1.42
3623853--3624171	19	16.3	19	69	22	132	55	14	0	29	1.44
3623895--3624168	101	2.6	101	89	5	395	56	13	0	29	1.43
3624176--3624248	27	2.7	26	89	8	110	16	27	24	31	1.96
3624842--3624902	29	2.1	29	84	3	79	55	4	1	37	1.31
3625922--3625978	31	1.9	30	89	7	89	33	5	0	61	1.18
3626055--3626094	18	2.2	19	86	4	55	30	0	2	67	1.04
3634754--3634793	16	2.5	16	91	0	62	47	2	7	42	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3634800--3634974	68	2.6	68	99	0	341	40	5	9	45	1.58
3634850--3634877	9	3.1	9	100	0	56	32	0	10	57	1.33
3634918--3634945	9	3.1	9	100	0	56	32	0	10	57	1.33
3638387--3638417	11	2.8	11	90	0	53	67	0	0	32	0.91
3640717--3640859	41	3.5	41	85	0	196	24	19	23	32	1.98
3640709--3640900	82	2.3	83	77	7	187	25	19	23	31	1.98
3641307--3641463	71	2.2	70	80	4	181	32	10	14	42	1.81
3646513--3646595	30	2.7	31	81	3	98	44	3	3	48	1.37
3651415--3651459	24	1.9	23	90	4	72	68	4	2	24	1.19
3651415--3651459	23	1.9	24	86	4	65	68	4	2	24	1.19

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226